Probiotic bacterial molecules and their use in methods to treat/prevent infection by harmful bacteria and to provide nutritional health

ABSTRACT

This invention provides isolated and characterized secreted molecules from probiotic bacteria for use in compositions and methods for the treatment and/or prevention of infection by harmful pathogenic bacteria. The isolated secreted molecules can also be used in nutritional or medical food products which provide probiotics to the gastrointestinal tract of a mammal.

RELATED APPLICATIONS

Benefit of priority is claimed under 35 U.S.C. 119(e) to U.S. Provisional Application No. 61/076,581 filed Jun. 27, 2008 and International Application No. PCT/CA2009/000901 filed on Jun. 26, 2009. The disclosures of the above referenced applications are fully incorporated by reference

FIELD OF THE INVENTION

This invention relates generally to the control of pathogenic bacteria in mammals. More particularly, the invention relates to the isolation and identification of molecules secreted/derived from probiotic bacteria for use in compositions and methods for the treatment and/or prevention of infection by harmful pathogenic bacteria. The isolated molecules are useful in nutritional and medical food products which provide probiotics to the gastrointestinal tract of a mammal.

BACKGROUND OF THE INVENTION

Enterohaemorrhagic Escherichia coil O157:H7 (EHEC O157) is a member of the attaching and effacing Escherichia coil (AEEC) (3) that form specific structures known as attaching and effacing (AE) lesions in the host intestinal epithelial wall, which allow EHEC O157 to intimately attach to the epithelial membrane in order to achieve colonization (18, 22, 24). In AE lesion formation initial attachment of the bacterium is followed by the injection of bacterial proteins into the host cell (8, 17, 21) through a specialized translocation apparatus, termed a type III secretion system (T135). This results in the cytoskeletal rearrangement and effacement of the microvilli. Finally a 94-kDa bacterial outer membrane protein, termed intimin is required (19), resulting in the formation of the bacterium-host cell pedestal structure (9, 10, 27, 37).

A number of enteric bacteria, including EHEC, are known to produce and/or respond to chemical signals called autoinducers. The use of this cell-to-cell signaling mechanism facilitates enteric microbes to regulate important traits that allow them to successfully colonize and/or start infection in their host (20). EHEC virulence-specific genes are regulated by quorum sensing (QS) (34, 35) mediated by the autoinducer-3/epinephrine/norepinephrine signaling system (36). Autoinducer-3 (AI-3) is a molecule produced by the commensal gastrointestinal microbiota that seems to resemble the hormones epinephrine and norepinephrine produced by the host (36) and is believed to allow the enteric pathogens to organize a concerted activation/repression of specifically required genes. Furthermore, an EHEC sensor kinase, QseC, which binds AI-3 and the hormones epinephrine/norepinephrine and regulates virulence in a rabbit infection model provides evidence that this QS system participates in interkingdom cross-communication (5). Thus, enteric pathogens possess an extremely complex regulatory system that is used to systematically compete in such a challenging environment and inhibition of this QS system may lead to an attenuation of virulence.

Salmonella spp. are widespread with in the environment. S. Typhimurium DT104 typically is resistant to the antibiotics ampicillin, chloramphenicol, streptomycin, sulphonamides and tetracycline (R-type ACSSuT)(48). Salmonella enterica serovar Typhimurium requires the expression of the TTSS for a number of important virulence factors like bacterial invasion, macrophage apoptosis and enteropathogenesis (41, 43, 44, 46 and 47). TTSS gene transcription is activated in response to environmental signals (39, 40 and 45). Cattle are thought to be a primary reservoir through which salmonella multi-resistant pathogens can enter the food supply.

The human gastrointestinal tract harbors a complex microbial ecosystem containing a large number and variety of bacteria that has a major impact on gastrointestinal function and thereby on human health and well-being. Among these, some opportunistic bacteria are considered to be detrimental and cause adverse conditions such as diarrhea, infections, gastroenteritis and endotoxaemia, while other bacteria are considered “probiotic”, in that they perform beneficial functions for the human organism (49).

Probiotic bacteria are known to stimulate the immune system and exert a competitive exclusion of pathogenic and putrefactive bacteria, reduce the amounts of ammonia and cholesterol in the blood, and promote absorption of minerals (50). Additionally, probiotic bacteria produce antagonist effects against pathogenic microorganisms; stimulate the immune system; improve lactose digestion; are lipolytic, thereby allowing fats to be more digestible; reduce plasma cholesterol; protect the intestinal mucosa, thereby assuring effective assimilation of the nutritive substances; produce polysaccharides that are active on some tumors; and reduce viability of some enzyme-producing microorganisms which catalyze the conversion of procarcinogenic substances into carcinogenic substances. It is believed that the probiotic bacteria exert their effects in a synergistic manner to curtail and retard the growth of pathogenic and detrimental bacteria of the gut (51 and 52).

It is believed that the health and well being of people and animals can be positively or negatively influenced by the microorganisms which inhabit the gastrointestinal tract, and in particular the large bowel. These microorganisms through the production of toxins, metabolic by-products, short chain fatty acids, and the like affect the physiological condition of the host and improve the physiological well being of the host. As a result, research has focused on using probiotic cultures in a variety of compositions and methods to improve health.

For example, US 20040161422 discloses a nutritional food product comprising at least one probiotic bacteria to improve gut function. U.S. 20040115177 discloses methods of administering probiotic bacteria to livestock animals in an amount effective to reduce the amount of hazardous bacteria. Dietary supplements such as those for example sold as part of the PARINIAT™ line is formulated with Lactobacillus acidophilus strain L.B. and is stated to be beneficial for general digestive and intestinal problems.

Studies have also determined that L. acidophilus La-5 may affect virulence-related gene expression in Escherichia coil O157:H7 (29). La-5 cell spent medium was used and found to affect bacterial transcriptional regulators, however, the studies were all conducted in vitro on Escherichia coil cultures and thus the conclusions could not support or identify the bacterial factor(s) responsible for the regulation of the EHEC O157 QS system. It was thus concluded in the study that animal models were required to characterize the efficacy and potential use of the L. acidophilus La-5 in mammalian therapeutic embodiments.

In view of the foregoing, it would be desirous to isolate and characterize the factor(s) produced by probiotic bacteria that provide beneficial effects in mammals for prophylaxis, prevention and treatment of harmful bacterial infection as well as use of such molecules as nutritional and food supplements for general health.

SUMMA OF THE INVENTION

The invention provides novel molecules secreted/derived from probiotic bacteria. The novel molecules are secreted/derived from probiotic bacteria meaning that they are secreted by probiotic bacteria directly into the medium or derived from culture fractions.

The invention thus provides isolated probiotic proteinaceous fractions from probiotic bacteria and also provides the novel molecules from isolated from such fractions. The invention describes the isolation, characterization and methods of use of the molecules of the invention to prevent or treat infection by harmful bacteria as an alternative or adjunct to traditional antibiotic therapy. The molecules of the invention can be used ingested to improve health and incorporated into beverage and food sources to improve nutritional qualities.

The molecules of the invention are low molecular weight and in aspects, proteinaceous as well as heat-stable and partially affected by enzymatic treatment. The secreted molecules of the present invention can also be used as a nutritional supplement to help maintain and/or increase the general health of a mammal and may be incorporated into a variety of food and beverage products for ease of ingestion as well as incorporated into medicaments. As such the secreted molecules of the present invention can be regarded in one aspect as probiotic. By “probiotic” it is generally defined as a live microbial food supplement which beneficially affects the host human or animal by improving its intestinal microbial balance. However, in the present invention “probiotic” is meant to encompass the secreted molecules from probiotic bacteria.

According to an aspect of the present invention are isolated secreted molecules from probiotic bacteria, said secreted molecules being effective in vitro and in vivo to prevent and/or treat bacterial infection.

According to an aspect of the present invention are isolated secreted molecules from probiotic bacteria, said secreted molecules being effective for mammalian nutritional health.

According to another aspect of the present invention are compositions comprising lyophilized probiotic proteinaceous fractions as effective in the prevention and/or treatment of infection by harmful bacteria. Such lyophilized fractions may also be used as a source of mammalian nutritional health.

According to another aspect of the present invention are isolated secreted molecules from a probiotic bacteria selected from Lactobacillus, Bifidobacteria and Streptococcus. In aspects, the Bifidobacteria is a species selected from Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis Bifidobacterium crudilactis. In other aspects, the probiotic bacteria is a Lactobacillus selected from Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus. In other aspects the bacterium is Lactococcus Lactis. Still in other aspects the probiotic bacteria is from a Streptococcus such as Streptococcus thermophilus.

According to another aspect of the invention, the secreted molecules of the present invention are effective for treatment and prophylactic therapy against infectious bacteria such as but not limited to EHEC O157:H7 and Salmonella enterica.

According to another aspect of the invention is a composition comprising one or more secreted molecules from a probiotic bacterium, said composition being effective to reduce and/or prevent harmful bacterial infection in mammals.

According to another aspect of the invention is a composition comprising one or more secreted molecules from a probiotic bacterium and an antibiotic, said composition being effective to reduce and/or prevent harmful bacterial infection in mammals.

According to another aspect of the invention is a composition comprising one or more secreted molecules from a probiotic bacterium, a sugar source and optionally an antibiotic, said composition being effective to reduce and/or prevent harmful bacterial infection in mammals. In aspects, the sugar source comprises glucose.

According to another aspect of the invention is a composition comprising one or more secreted molecules from a bacteria selected from Lactobacillus, Bifidobacterium and Streptococcus and mixtures thereof.

In aspects of the invention, the secreted molecules are proteinaceous. In further aspects of the invention, the secreted molecules are small, low molecular weight peptides. In further aspects, the secreted molecules can withstand heating at up to about 90° C., freezing, thawing, lyophilization and/or spray drying.

According to another aspect of the invention is a secreted molecule from Lactobacillus acidophilus (La-5), wherein said molecule comprises one of the following sequences: YPVEPF, YPPGGP, YPPG and NQPY.

According to another aspect of the invention is a composition comprising a secreted molecule from Lactobacillus acidophilus (La-5), wherein said molecule can inhibit colonization by EHEC O157:H7 in viva in a mammal.

According to another aspect of the invention is a composition comprising a secreted molecule from Lactobacillus acidophilus (La-5), wherein said molecule comprises one of the following amino acid sequences: YPVEPF, YPPGGP, YPPG and NQPY and said molecule can prevent and/or treat infection of EHEC O157:H7, The amino acid sequences may have substitutions that do not adversely affect the activity of the secreted molecule.

According to another aspect of the invention is a composition comprising a secreted molecule from a Bifidobacterium selected from Bifidobacterium longum, Bifidobacterium bifidum and Bifidobacterium infantis and/or Bifidobacterium crudilactis, wherein said composition can prevent and/or treat infection of EHEC O157:H7 in vivo in a mammal.

According to another aspect of the invention is a food product, beverage product, medicament or nutritional supplement that comprises one or more secreted molecules of the present invention from a bacterium selected from Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis, Streptococcus thermophilus and combinations thereof.

According to another aspect of the invention is an ingestible health product for mammals, wherein said ingestible health product has probiotic characteristics and comprises one or more secreted molecules from Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum and Bifidobacterium infantis and/or Bifidobacterium crudilactis.

According to another aspect of the present invention is a method for preventing and/or therapeutically treating infections by Escherichia coli O157:H7 and/or Salmonella, the method comprising administering to a subject an effective amount of a composition comprising one or more secreted molecules from Lactobacillus acidophilus (La-5). In aspects, the secreted molecules may further comprise those from Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis, Streptococcus thermophilus and combinations thereof.

The present invention also provides a method for preventing the carriage by a food production animal of Salmonella strains that cause human salmonellosis. The method comprises the step of administering an effective amount of secreted molecules from probiotic bacteria to the food production animal prior to exposure to Salmonella strains that cause human salmonellosis. The administration of the secreted molecules from probiotic bacteria is accomplished by feeding a feed supplement or additive which comprises an effective amount of said secreted molecules, or by supplying a water treatment additive or inoculum to the animals' drinking water. The invention therefore provides a feed supplement composition comprising secreted molecules from probiotic bacteria and a water additive comprising secreted molecules from probiotic bacteria. The probiotic bacteria may be selected from the group consisting of Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis, Streptococcus thermophilus and combinations thereof.

According to another aspect of the present invention is a method of preventing infection by harmful bacteria in a mammal, the method comprising administration of an effective amount of a secreted molecule(s) from a probiotic bacteria selected from the group consisting of Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Laths, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis, Streptococcus thermophilus and combinations thereof.

According to another aspect of the present invention is a method of preventing colonization by harmful bacteria in a mammal, the method comprising administration of an effective amount of a secreted molecule(s) from a probiotic bacteria selected from the group consisting of Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum and Bifidobacterium infantis and/or Bifidobacterium crudilactis.

According to another aspect of the present invention is a method of improving the general health of a mammal, the method comprising administration of an effective amount of a secreted molecule(s) from a probiotic bacteria selected from the group consisting of Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum and Bifidobacterium infantis and/or Bifidobacterium crudilactis.

In any of the aforementioned methods of the invention, the molecule(s) of the invention may be provided isolated and/or purified or within a cell free culture fraction from the probiotic bacteria. Alternatively, the secreted molecules may be provided within a composition, edible food product or supplement or ingestible liquid. They can be used in conjunction with whole probiotic bacteria and with pharmaceuticals such as known antibiotics.

Other features and advantages of the present invention will become apparent from the following detailed description. It should be understood, however, that the detailed description and the specific examples while indicating embodiments of the invention are given by way of illustration only, since various changes and modifications within the spirit and scope of the invention will become apparent to those skilled in the art from said detailed description.

DESCRIPTION OF THE FIGURES

The present invention will be further understood from the following description with reference to the Figures, in which:

FIG. 1. Fluorescent micrographs of HEp-2 cells incubated for 6 h with EHEC strain 43984. Bright fluorescence with the fluorescein isothiocyanate-phalloidin stain, indicating aggregation of foci of alpha-actinin underneath adherent EHEC (arrows) was visualized under the microcolonies by fluorescence microscopy. (A) Infected cells; (B) Non-infected cells; (C) EHEC infected cells co-incubated with 40 μl of peptide fraction of L. acidophilus La5; and (D) EHEC LuxS (-ve) infected cells. Original magnification, 40×. Bar, 22 μm. Images are representative of three independent assays.

FIG. 2. Bioluminescence images from 10⁸ CFU EHEC O157 infected mice. Images were obtained on the 3^(rd), 5^(th), and 7^(th) day post-infection. Areas in which luminescent EHEC O157 is present are shown as color-overlay.

FIG. 3. Average daily fecal shedding of EHEC O157. (⋄) group 2 (probiotic-EHEC), (Δ) group 3 (EHEC-probiotic) and (□) group 4 (positive control). The data are average daily fecal values of each group (means±standard deviations, n=5).

FIG. 4. Body weights of mice during the week following challenge indicated as percentage of initial weights. (×) group 1 (negative control), (⋄) group 2 (probiotic-EHEC), (Δ) group 3 (EHEC-probiotic) and (□) group 4 (positive control). The data are average daily weight values of each group (means±standard deviations, n=5).

FIG. 5. Effect of LA-5 cell-free spent medium fraction (F54) and Bifidobacteria CFSM on the induction of hilA in Salmonella Typhimurium via LuxS assay. Standard deviations from the mean are calculated from 2 independent trials with 3 wells per trial. Expression of hilA gene is monitored by luminescence (RLU) produced by the Salmonella construct.

FIG. 6. Effect of LA-5 and Bifidobacteria CFSM and CFSM fractions (F54) on the induction of LEE1 in Enterohaemorrhagic E. coli O157:H7 via LuxS assay. Standard deviations from the mean are calculated from 2 independent trials with 3 wells per trial. Expression of LEE1 is monitored by luminescence (RLU) produced by the E. coli O157:H7 construct.

FIG. 7. Effect of LA-5 and Bifidobacteria CFSM (CFSM fraction 54 [F54] separated by cation exchange chromatography [CEX]) on the induction of LEE1 in Enterohaemorrhagic E. coli O157:H7 via LuxS assay. Standard deviations from the mean are calculated from 2 independent trials with 3 wells per trial. Expression of LEE1 is monitored by luminescence (RLU) produced by the E. coil O157:H7 construct.

FIG. 8. Luminescence activity of LEE1::luxCDABE and LEE2::luxCDABE fusions in E. coli O157:H7 (C3, C4) grown in LB broth alone (EHEC/LB) or in LB broth supplemented with 10% of L. acidophilus La-5 CFSM fractions 25 to 40 (EHEC/F). Data was collected after 16 h growth. Results were expressed as relative light units (RLU) defined as counts min⁻¹ and adjusted to OD₆₀₀ (RLU/OD₆₀₀). The data are mean±SD values of three independent replicates.

FIG. 9. Autoinducer-2 bioassay conducted three times with the same samples. EHEC O157:H7 (ATCC 43894) was grown for 16 h in LB broth alone (EHEC/LB) or supplemented with 10% of L. acidophilus La-5 CFSM fractions 25 to 40 (EHEC/F). The cell-free supernatants from these cultures were collected as described in the methods section. Results were expressed as relative light units (RLU) defined as counts min⁻¹ and adjusted to OD (RLU/OD₆₀₀). The data are mean±SD values of three independent replicates.

FIG. 10. Fractionation of L. acidophilus CFSM peptides by size exclusion FPLC.

FIG. 11. LC-MS analysis of peptide peak 1 (Maira 1).

FIG. 12. LC-MS analysis of peptide peak 1 (Maira 3).

FIG. 13. LC-MS analysis of peptide peak 1 (Maira 4).

FIG. 14 E. coli O157:H7 construct C3 (LEE1::lux) and Ca (LEE2::lux) grown in LB broth supplemented with medium conditioned by the growth of probiotic LAB. Constructs grown in LB:MRS broth were used as positive controls (data not shown). Light induction is reported as relative light units (RLU) per cell.

FIG. 15. E. coli O157:H7 construct C1 (LEE1;;lux), C2 (LEE2::lux), C3 (LEE1::lux) and C4 (LEE2::lux) grown in LB broth supplemented with medium conditioned by the growth of probiotic LAB. Constructs grown in LB:MRS broth were used as positive controls (data not shown). Light induction is reported as relative light units (RLU) per cell.

FIG. 16. AI-2 signaling molecule production as detected by the V. harveyi autoinducer-2 bioassay. EHEC O157:H7 strain 43894 was grown in LB broth supplemented with CFSM of probiotic LAB. Positive and negative controls were V. harveyi strain BB152 (+) and E. coli DH5α (−), respectively (negative control not shown). Results were expressed as relative light units (RLU) defined as counts min⁻¹ and adjusted to OD₆₀₀ (RLU/OD₆₀₀). The data are mean±SD values of three independent replicates of each sample.

DETAILED DESCRIPTION OF THE EMBODIMENTS

The present invention provides secreted molecules isolated from probiotic bacteria and further culture fractions of the bacteria that can minimize, inhibit and treat infection by harmful enteric pathogens in mammals. The molecules are demonstrated to be effective both in vitro and in vivo. In particular, the molecule(s) have been isolated and characterized from Lactobacillus acidophilus (La-5) as well as from strains of Bifidobacterium such as but not limited to Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis and Bifidobacterium crudilactis (Delcenserie, V., F. Gavini, H. Beerens, O. Tresse, C. Franssen, and G. Daube. 2007. Description of a new species, Bifidobacterium crudilactis sp. nov., isolated from raw milk and raw milk cheeses. Syst Appl Microbiol. 30:381-9: Daube, G., V. Delcenserie, and F. Gavini. Mar. 31, 2006, 2006. Probiotic Bifidobacterial Species. International Patent Application: PCT/EP2006/061247, the contents of which are all incorporated herein by reference) and also from Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis and Streptococcus thermophilus. The secreted molecules are now shown effective against colonization of Escherichia coli O157:H7 and Salmonella.

By ‘secreted/derived’ is meant that the probiotic bacteria secrete the novel molecules directly into the culture medium. In aspects, the molecules can also be formed indirectly within the culture medium.

The novel secreted molecules of the invention in aspects are small peptides that are temperature resistant (can be heated, frozen and thawed and still exhibit activity), are stable for long periods of time frozen (over two years), can be produced readily in large volumes (for example about 2 mg/L), can be lyophilized and spray dried. The molecules can be incorporated into a variety of substances for administration to a mammal such as any type of animal and humans. For example, the secreted molecules can be incorporated into any type of food product, nutritional supplement or beverage for animal or human consumption. As a therapeutic, the secreted molecules of the invention can be administered in a manner to an animal or human for the effective treatment of bacterial infection such as by EHEC O157:H7 or Salmonella. As a therapeutic or prophylactic, the treatment can be in conjunction with other antibiotics or other therapies as is desired. In another embodiment, the secreted molecules of the invention can be used in compositions and in methods in addition to use of whole probiotic bacteria.

In aspects the secreted molecules are isolated from Lactobacillus acidophilus (La-5), wherein said molecule comprises one or more of the following amino acid sequences: YPVEPF, YPPGGP, YPPG and NQPY. It is understood by one of skill in the art that these sequences can be altered by deletion, substitution or insertion so long as the activity of the secreted molecules is not substantially affected to reduce and/or prevent bacterial infection.

The sequences can further have insertions, substitutions, or deletions of one or more of the amino acid residues. Furthermore, the molecules of the invention may further be altered with glycosylation, unglycosylation, organic and inorganic salts and covalently modified. Also encompassed are molecules modified to increase in vivo half life, e.g., PEGylated. Possible but non limiting modifications to the molecules of the invention include modifications comprising combinations of amino acid substitutions together with a deletion of one or more amino acids or the addition of one or more amino acids.

In a generalized aspect of the invention, the molecules of the invention can be provided in a therapeutically effective amount alone or within a composition and may vary according to factors such as the infection state/health, age, sex, and weight of the recipient. Dosage regima may be adjusted to provide the optimum therapeutic response and may be at the discretion of the attending physician or veterinarian. For example, several divided doses may be administered daily or on at periodic intervals, and/or the dose may be proportionally reduced as indicated by the exigencies of the therapeutic situation. The amount of the molecule for administration will depend on the route of administration, time of administration and varied in accordance with individual subject responses. Suitable administration routes are intramuscular injections, subcutaneous injections, intravenous injections or intraperitoneal injections, oral and intranasal administration. Compositions comprising the molecules or the culture fractions of the invention may comprise about 0.1% to about 90% by weight of the active and any range there-in-between.

The molecules or culture fractions may be administered over a period of hours, days, weeks, or months, depending on several factors, including the severity of the infection being treated, whether a recurrence of the infection is considered likely, or to prevent infection etc. The administration may be constant, e.g., constant infusion over a period of hours, days, weeks, months, etc. Alternatively, the administration may be intermittent, e.g., the molecules may be administered once a day over a period of days, once an hour over a period of hours, or any other such schedule as deemed suitable.

The compositions described herein can be prepared by per se known methods for the preparation of pharmaceutically acceptable compositions which can be administered to subjects, such that an effective quantity of the active substance is combined in a mixture with a pharmaceutically acceptable vehicle. Suitable vehicles are described, for example, in “Handbook of Pharmaceutical Additives” (compiled by Michael and Irene Ash, Gower Publishing Limited, Aldershot, England (1995)). On this basis, the compositions include, albeit not exclusively, solutions of the substances in association with one or more pharmaceutically acceptable vehicles or diluents, and may be contained in buffered solutions with a suitable pH and/or be iso-osmotic with physiological fluids. In this regard, reference can be made to U.S. Pat. No. 5,843,456 (the entirety of which is incorporated herein by reference).

Pharmaceutical acceptable carriers are well known to those skilled in the art and include, for example, sterile saline, lactose, sucrose, calcium phosphate, gelatin, dextrin, agar, pectin, peanut oil, olive oil, sesame oil and water. Furthermore the pharmaceutical composition according to the invention may comprise one or more stabilizers such as, for example, carbohydrates including sorbitol, mannitol, starch, sucrose, dextrin and glucose, proteins such as albumin or casein, and buffers like alkaline phosphates.

For example, in accordance with a veterinary embodiment of the invention, a composition containing the secreted molecules in an acceptable carrier is administered to an animal at least about three weeks prior to shipment of the animal in an amount effective to reduce the amount of Salmonella in the animal both before and after harvest. The secreted molecules from probiotic bacteria may be delivered in an acceptable carrier via a food route of administration (e.g., milk product, water, feed, or any suitable medium) or by a medicinal route of administration (e.g., oral or intranasal innoculation). Acceptable carriers for the secreted molecules from probiotic bacteria include feed products for the livestock animal, including, for example, milk or yogurt cultures. A dry form of the secreted molecules from probiotic culture can also be produced and added to feed by the process of lyophilization. Lyophilized secreted molecules may be delivered to animals by any suitable route of administration including via dry feed and water. By administering such therapy in advance of transport, significant levels of hazardous bacteria such as Salmonella, are reduced in the livestock pre and post slaughter.

In another non-limiting embodiment of the present invention administration of the isolated secreted molecules from probiotic bacteria can be accomplished by any method likely to introduce the molecules into the digestive tract. The bacteria can be mixed with a carrier and applied to liquid or solid feed or to drinking water. The carrier material should be non-toxic to the animal. The molecules can also be formulated into a composition provided as an inoculant paste to be directly injected into an animal's mouth. The formulation can include added ingredients to improve palatability, improve shelf-life, impart nutritional benefits, and the like. If a reproducible and measured dose is desired, the molecules can be administered by a rumen cannula, as described herein. The amount of the secreted molecules isolated from probiotic bacteria to be administered is governed by factors affecting efficacy. By monitoring the numbers of E. coli O157:H7 in feces before, during and after administration of the secreted molecules from probiotic bacteria, those skilled in the art can readily ascertain the dosage level needed to reduce the amount of E. coli O157:H7 carried by the animals. The secreted molecules from one or more strains of probiotic bacteria can be administered together. A combination of strains can be advantageous because individual animals may differ as to the strain which is most persistent in a given individual.

The secreted molecules from probiotic bacteria can be administered as a preventive, to prevent animals not presently carrying E. coli O157:H7 from acquiring the strain by exposure to other animals or environments where E. coli O157:H7 is present. Young calves and mature animals about to be transferred to a new location, such as a feed lot, are attractive candidates for preventive administration. Treatment of animals carrying E. coli O157:H7 can be accomplished to reduce or eliminate the amount of E. coli O157:H7 carried by the animals, by administering the secreted molecules from probiotic bacteria to E. coli O157:H7 infected animals. Animals known to be shedding E. coli O157:H7 in feces, or those raised where E. coli O157:H7 is known to exist are suitable candidates for treatment with the molecules of the invention.

The methods for administering the secreted molecules from probiotic bacteria are essentially the same, whether for prevention or treatment. Therefore, the need to first determine whether E. coli O157:H7 being carried by the animals is removed. By routinely administering an effective dose to all the animals of a herd, the risk of contamination by E. coli O157:H7 can be substantially reduced or eliminated by a combination of prevention and treatment.

It is understood by one of skill in the art that the isolated molecules and culture fractions containing such, can be used in conjunction with known antibiotic therapies for prevention and/or treatment of bacterial infection in mammals. It is also understood that compositions of the novel molecules of the invention whether isolated or in isolated culture fraction can also be used in conjunction (formulated with) with a sugar source such as for example glucose in amounts of up to about 0.01% to about 0.1% or more by weight of the composition.

It is also understood that although the compositions of the invention may be directly ingested or used as an additive in conjunction with foods, it will be appreciated that they may be incorporated into a variety of foods and beverages including but not limited to yoghurts, ice creams, cheeses, baked products such as bread, biscuits and cakes, dairy and dairy substitute foods, confectionery products, edible oil compositions, spreads, breakfast cereals, juices and the like. Within the scope of the term “foods” are to be included in particular food likely to be classified as functional foods, i.e. “foods that are similar in appearance to conventional foods and are intended to be consumed as part of a normal diet, but have been modified to physiological roles beyond the provision of simple nutrient. Similarly, the compositions of the invention may be presented in dosage forms such as in a capsule. Again, amounts of the active isolated molecule will vary depending on the particular food or beverage and may contain any amount up to about 100% of the product, especially when formulated as an ingestible capsule. It is also understood by one of skill in the art that the molecules of the invention whether isolated or provided as within a culture fraction can be combined with the use of probiotic bacteria in methods of treatment or for nutritional supplementation.

Lactobacillus acidophilus La-5 CFSM Decreased E. coli O157:H7 Attachment to Tissue Culture Cells.

It was previously demonstrated that L. acidophilus La-5 SM influenced EHEC O157 T3SS (29). Down-regulation of important virulence-related gene expression was presently detected after EHEC O157 was grown in medium supplemented with biologically active fractions of L. acidophilus La-5 CFSM (La-5 fractions) when compared with EHEC O157 grown in the same medium without the addition of La-5 fractions. Presently it was demonstrated that the addition of La-5 fraction would have an influence on EHEC O157 adhesion to eukaryotic cells in vitro and in vivo. Adhesion and AE lesion formation in eukaryotic cells (HEp-2 and HeLa cell lines, respectively) were substantially reduced when La-5 fractions were added before exposure to E. coli O157:H7 strain ATCC 43894. infection of HeLa cells with EHEC O157 alone showed typical localized adherence behavior (FIG. 1A). However, when it was coincubated with La-5 fraction we could visualize the reduction of actin accumulation underneath attached bacteria (FIG. 1C). HeLa cells infected with EHEC O157 LuxS⁻ in the presence of propanolol showed no evidence of actin accumulation (FIG. 1D); comparable to non-infected HeLa cells incubated only with the La-5 CFSM selected fraction (F34) (FIG. 113). To complement the FAS test we performed the adhesion assay with the same EHEC O157 strain 43894 on the HEp-2 cell line. The results of the adhesion assay are summarized in Table 2. Infection of HEp-2 cells with EHEC O157 was normalized to 100% in order to compare with the La-5 treated cells. The degree of attachment was reduced by 76% in the wells containing the La-5 biologically active fraction.

Adherence of EHEC to human epithelial cells involves the activation of the adhesion intimin, an outer membrane protein encoded by the eae gene (9, 26, 27, 37). Previous work (27) showed that production of intimin-specific antisera blocked adherence of EHEC to HEp-2 cells. The immunogenic capacity of intimin has been extensively studied in order to develop anti-EHEC and anti-EPEC vaccines (6, 7, 12, 28). The results demonstrate that secreted molecules from probiotic bacteria could be used to prevent EHEC adherence to epithelial cells in tissue culture models.

Relationship Between Infectious Dose of EHEC and Bioluminescent Imaging in ICR Mice.

The optimal infectious dose of EHEC for the bioluminescent imaging of bacterial colonization on SPF ICR mice was determined. Five different cell concentrations, ranging from 10⁵ to 10⁹ cells per dose, were used for a single challenge with EHEC O157 bioluminescent strain. The bioluminescent signal for mice infected with 10⁵ cells was very weak throughout the experiment and only at an inoculation of 10⁷ CFU or greater was the signal strong enough to be visualized and computed (Table 3). Based on previous work in which EHEC O157 proliferated in mice intestines within 24 h of infection (2), it was expected that a dose of 10⁵ CFU would have been enough to emit a strong light output. The aim was to monitor EHEC O157 colonization in viva in a short period of time, an inoculation dose of 10⁸ CFU was selected for the challenge studies.

L. Acidophilus La-5 Biologically Active Fraction Reduces Attachment of EHEC to Intestinal Epithelium of ICR Mice.

The ability of EHEC O157 to colonize mice treated with the probiotic La-5 fraction and non-treated ICR mice was compared. EHEC O157 was recovered from the feces of all groups of mice that were infected with the organism (i.e. groups 2, 3 and 4) throughout the study. The proportion of mice shedding EHEC O157 declined significantly over the course of the study in animals that received the La-5 fraction (groups 2 and 3; P=0.0004 and P=0.002, respectively); however, the fecal shedding in mice that were infected with EHEC O157 in the absence of the fraction (group 4) increased to 10⁸ CFU g⁻¹ after the fifth day post-infection (FIG. 3). At this time mice from group 4 were showing signs of dehydration and physical deterioration and were re-evaluated every 8 h (FIG. 4). Three mice from group 4 died within the evaluation period and the rest showed a significant reduction in body temperature (<34° C.). At day 5, the end point of group 4 was reached and the remaining mice were euthanized (Table 4). For groups 2 and 3, the condition of the mice remained acceptable ten days post-infection. Bioluminescent signals from mice in groups 2, 3 and 4 were taken and analyzed in order to compare their light intensities at the specified times. On the third day of the experiment, all mice were orally infected with 10⁸ CFU EHEC O157. Bioluminescence was monitored on the third, fifth and seventh day after infection. On the third day after infection, strong bioluminescence was observed in the gastrointestinal (GI) tract of all mice in groups 4 (FIGS. 2 a) and 3 (FIG. 2 c), and two mice from group 2 (FIG. 2 f). There was no significant difference in bioluminescence values from all groups of mice at the third day post-infection. However, significant differences were observed after the fifth day post-infection as one mouse from group 2 (FIG. 2 g) and two mice from group 3 (FIG. 2 d) showed no bioluminescent signal. However, the mouse producing the positive signal from group 3 (FIG. 2 d) exhibited strong bioluminescence when compared to the weak bioluminescent signal emanating from the two mice in group 2 (FIG. 2 g). Bioluminescence observed at the seventh day post-infection was greatly decreased in both probiotic treated groups indicating that the probiotic La-5 fraction is capable of inhibiting EHEC O157 attachment to intestinal epithelial cells (FIG. 2 e and FIG. 2 h). It has been proposed that the presence of probiotic bacteria in the host gastrointestinal tract enhances immunity; thereby protecting the host against bacterial infections (11, 13, 31, 32). Taking into account the strain specificity of probiotics (2), employed cell-free spent medium was selected and employed from a probiotic bacterium that down-regulated virulence related genes of EHEC in vitro (29). Due to the ability of probiotic cells to protect animal and human hosts once present in their GI tract (1446, 30, 33, 38), the present invention focused on the role of probiotic secreted molecules in the control of infection.

Activity Against Other Enteric Pathogens

The effects of secreted molecules of L. acidophilus LA-5 and several strains of Bifidobacteria against Salmonella enterica serovar Typhimurium virulence gene expression were also demonstrated. The selection of hilA (Hyper Invasive Locus) gene for the gene fusion assay was based on its importance on the gene transcription of the type III secretion system (TTSS) encoded within Salmonella pathogenicity island 1 (SPI1).

Probiotics cell-free spent medium (CFSM) and CFSM fractionated by size exclusion chromatography (SEC) were studied by the LuxS gene fusion assay. LuxS assay was used to determine the expression of hilA (luxCDABE::hilA). Neither Bifidobacteria CFSM nor LA-5 CFSM fraction (F54) affected the growth rates of Salmonella (FIG. 5). When determined by the LuxS assay, CFSM were found to have an inhibitory effect on the NIA expression compared to the control (FIG. 5).

Activity Produced by Other Probiotic Bacteria

The effects of secreted molecules of several strains of proven probiotic bacteria were also tested: Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis and three Bifidobacterial species not yet named against enterohaemorrhagic Escherichia coil O157:H7 and Salmonella enterica serovar Typhimurium virulence gene expression via the LuxS assay. Results from these experiments showed that the probiotic strains contain molecules that work in a L. acidophilus LA-5-like manner inhibiting induction of LEE1 in enterohaemorrhagic E. coli O157:H7 (FIG. 6) and hilA in S. Typhimurium (FIG. 5). Neither Bifidobacteria CFSM nor LA-5 CFSM fraction (F54) affected the growth rates of Salmonella (FIG. 5) and enterohaemorrhagic E. coli O157:H7 (FIG. 6). These preliminary results show differences in inhibitory activity but it is believed due to molecule(s) concentration. All probiotic strains grow at different rates and the protocol used for collecting the bacterial cell-free spent medium was following a 24 h period, since the growth period according to growth rate differences was standardized.

The effect of medium conditioned by the growth of probiotic strains on the expression of virulence-associated genes in E. coli O157:H7 was further characterized as follows to identify further stains of probiotic bacteria effective against EHEC: (1) The activation or repression of LEE operons was monitored using EHEC strain (ATCC 43894) transformed with gene reporter constructs containing luciferase gene luxCDABE (kindly provided by Dr. Haifeng Wang). These constructs operate under the transcriptional control of the LEE promoters. The expression of LEE operons was measured as light emission produced by E. coli O157:H7 constructs after exposure to medium conditioned by the growth of the probiotic strains. Probiotic strains used and found effective: Lactobacillus reuteri (RC14)(control), Lactobacillus fermentum (LFER), Lactobacillus rhamnosus (GR1), Lactococcus lactis (LL), Lactobacillus acidophilus La5 (LA5) and Streptococcus thermophilus (STTH).

Identification of the Active Secreted Molecules

Extracellular fractions from B. infantis cultures were studied after 24 h growth. After centrifugation (6000 g, 10 min) of 1 litre of culture, the supernatant was filtered through cellulose acetate membrane filters (pore size: 0.22 μm). The cell-free spent medium (CFSM) was then concentrated via lyophilisation to 1/100 of the original volume. The lyophilized CFSM was resuspended in molecular Biology grade water and separated by size exclusion chromatography (SEC) and the active fractions were stored at −20° C. for further analysis. Ion exchange chromatography (IEC) was used following the SEC since this is suitable for sample fractionation, purification and screening. The different fractions (basic and acidic proteins concentrated by IEC and their flow-troughs) were then analyzed with the LuxS assay to determine which one of these fractions possesses the desired activity. After we confirm the presence of active molecules the fractions will be used in multidimensional analysis, such as 2-D gel electrophoresis and HPLC. At the same time we will carry out tissue culture assays with Salmonella enterica serovar Typhimurium and possibly other foodborne pathogens.

Preliminary results show that B. infantis CFSM active molecule bound to the cation exchange chromatography column (Aurum CEX, BioRad) suggesting that the molecules may be a small signal peptide possessing basic amino acids residues (FIG. 7).

The first step of separation of molecules from bulk quantities was performed by using size exclusion chromatography (SEC). Following the separated fractions, EHEC O157:H7 bioassays were performed to confirm the presence of the biologically active molecule(s). Consequently, analysis of the biologically active fractions was carried out by electrospray mass spectroscopy (ES-MS) and nuclear magnetic resonance (NMR). Results from the ES-MS and NMR showed that the biologically active fractions were still excessively complex, evading a conclusive report of the nature of the studied fractions. Biologically active fractions were subjected to pH sensitivity, enzymatic and temperature treatments in order to try to shed some light in their nature. Results from these tests, indicated that the biologically active fractions could be very small and of protein nature. Pursuing the necessity for purification, the biologically active fractions were further separated by low-pressure SEC and fractions collected were read at 214 and 280 nm wavelengths and tested again for activity against EHEC O157:H7. Four peaks were collected from which two were still active in vitro. The biologically active fractions consisted of four peptide peaks that were sent for peptide sequencing and the sequences provided herein in the example section.

The above disclosure generally describes the present invention. A more complete understanding can be obtained by reference to the following specific Examples. These Examples are described solely for purposes of illustration and are not intended to limit the scope of the invention. Changes in form and substitution of equivalents are contemplated as circumstances may suggest or render expedient. Although specific terms have been employed herein, such terms are intended in a descriptive sense and not for purposes of limitation.

EXAMPLES Example 1 Cell-Free Fractions

Cell-free fractions were prepared as previously described (25). Briefly, Lactobacillus acidophilus strain La-5 was grown overnight in modified DeMann, Rogosa and Sharpe medium. (mMRS; 10 g peptone from casein, 8 g meat extract, 4 g yeast extract, 8 g D(+)-glucose, 2 g dipotassium hydrogen phosphate, 2 g di-ammonium hydrogen citrate, 5 g sodium acetate, 0.2 g magnesium sulfate, 0.04 g manganese sulfate in 1 L distilled water) (MRS; BD Diagnostic Systems, Sparks, Md.). The overnight culture was diluted 1:100 in fresh medium. When the culture grew to an optical density at 600 nm (OD) of 1.6 (1.2×108 cells/ml), the cells were harvested by centrifugation at 6,000×g for 10 min at 4° C. The supernatant was sterilized by filtering through a 0.2-μm-pore-size filter (Millipore, Bioscience Division, Mississauga, ON, Canada) and will be referred to as cell-free spent medium (CFSM). Two litres of L. acidophilus La-5 CFSM was collected and freeze-dried (Unitop 600 SL, VirTis Co., Inc. Gardiner, N.Y., USA). The freeze-dried CFSM was reconstituted with 200 ml of 18-Ω water. The total protein content of the reconstituted CFSM was quantified using the BioRad DC protein assay kit II (Bio-Rad Laboratories Ltd., Mississauga, ON, Canada). Freeze-dried CFSM was stored at −20° C. prior to the assays.

Example 2 Fractionation of the L. Acidophilus La-5 CFSM

Five millilitres of CFSM were directly deposited on a P2 Biogel (Bio-Rad, Missasauga, ON, Canada) column (exclusion, 100 to 1,800 Da; 2.5×100 cm; Bio-Rad Laboratories Ltd.) and run at room temperature in 18-Ω water at a gravity flow rate of 0.8 ml/mm, and eighty 5 ml fractions were collected. The fractions collected were freeze-dried and resuspended in 1 ml 18-Ω water for preliminary screening against EHEC LEE1, LEE2 and AI-2 production as previously described (29). The total protein content of the fractions was quantified using the BioRad DC protein assay kit H. Fractions showing a strong inhibitory activity against LEE expression and AI-2 production were selected.

Example 3 Bacterial Strains

The bacterial strains used in this study are described in Table 1. L. acidophilus strain La-5 was grown under anaerobic conditions at 37° C. in mMRS medium (29). E. coli O157:H7 strain VS94 (36) was grown in Luria-Bertani broth (LB) (BD Diagnostic Systems). The bioluminescent strain of E. coli O157:H7 (luxCDABE) was grown in LB agar supplemented with ampicillin (Amp) and kanamycin (Km) (Sigma-Aldrich Canada Ltd., Oakville, ON, Canada) at a concentration each of 50 μg/ml and incubated overnight at 37° C. A single colony was taken from the plate and subcultured in LB broth and high glucose Dulbecco's minimum essential medium (DMEM/High) (Sigma-Aldrich Canada Ltd.) supplemented with the antibiotics and incubated overnight at 37° C. on a shaker at 150 rpm. The correlation between luminescence and cell count in LB broth was established by a standard plate count technique and by the measurement of the bioluminescence for 1 ml of culture serial dilutions with a tube luminometer (MGM Instruments, Hamden, Conn.). For the infection of the mice, an overnight culture was centrifuged at 13,000×g for 10 min, washed, and resuspended in fresh antibiotic supplemented LB broth.

Example 4 Fluorescent Staining of Actin Filaments

The FAS tests were performed as described previously (23) with some modifications. HeLa, human cervix adenocarcinoma epithelial cells, were provided by Dr. Roger Johnson (Laboratory for Foodborne Zoonoses, Public Health Agency of Canada). HeLa cells were grown in complete Eagle's minimal essential medium (EMEM) (Sigma-Aldrich Canada Ltd.) supplemented with 2% (v/v) fetal bovine serum (FBS) (Invitrogen Canada Inc., Burlington, ON, Canada). Cells were then plated onto 4-well micro-chamber slides at 2×10⁵ cells ml⁻¹ and incubated for 24 h in the presence of 5% CO₂. The cells were then maintained during the assay in serum and antibiotic free EMEM. Before inoculation with bacteria, selected fractions of L. acidophilus CFSM (F33 and F34) were added to treatment group wells. As a negative control for AE lesion formation we used an E. coli O157:H7 luxS-negative strain. The negative control group wells were inoculated with 10⁵ E. coli O157:H7 strain V594 with or without supplementation with 100 μM propanolol, and with only the selected fractions of L. acidophilus. Propanolol was used to suppress complementation of the AE phenotype by the hormones epinephrine and norepinephrine produced by the eukaryotic cells. After inoculation of EHEC O157 strain 43894 into treatment and positive control wells, the slides were incubated for 6 h at 37° C. in the presence of 5% CO₂. The cells were then washed three times with phosphate-buffered saline (PBS) and fresh medium was added. Cells were incubated for another 3 h and then washed six times with PBS and fixed in 4% paraformaldehyde. Fixed and washed cells were permeabilized by treating slides with 0.1% Triton X-100 in PBS for 15 min. Cells were incubated with 0.2% bovine serum albumin (BSA) (Invitrogen Canada Inc.) in PBS for 1 h. After three washes in PBS, slides were treated with a 10 μg/ml solution of fluorescein isothiocyanate (FITC) conjugated phalloidin (Sigma-Aldrich Canada Ltd.) in PBS for 40 min to specifically stain actin filaments. Slides were washed three times in PBS and then examined with a Zeiss Axioskope 2 microscope with fluorescence filters for FITC (Carl Zeiss Canada, Inc., North York, ON, Canada). Images were recorded using the Axiocam and Zeiss Axiovision Software (Carl Zeiss Canada, Inc.).

Example 5 HEp-2 Cell Adhesion Assay

In order to compare levels of adherence to HEp-2 epithelial cells in culture, we used an established model for evaluating adherence of EHEC O157:H7 (27). HEp-2, human laryngeal carcinoma epithelial cells, were a kind gift from Dr. Carlton Gyles (Department of Pathobiology, University of Guelph). Briefly, HEp-2 cells grown in EMEM supplemented with 10% (v/v) FBS were plated onto 24-well tissue culture plates at 2×10⁵ cells ml⁻¹ and incubated for 24 h in the presence of 5% CO₂. The cells were then maintained during the assay in serum and antibiotic-free EMEM. Before inoculation with bacteria, 10% NM of L. acidophilus CFSM selected fractions were added in triplicate to treatment group wells. Wells containing the negative control groups were inoculated with 10⁵ E. coli O157:H7 strain VS94 with or without supplementation with 100 μM propanolol (Sigma-Aldrich Canada Ltd.). Following inoculation of 10⁵ EHEC O157 into treatment and control group wells, the plates were incubated for 3 h at 37° C. in the presence of 5% CO₂. The cell monolayers were then washed three times with PBS to remove non-adhering bacteria and fresh medium was added. Cells were incubated for another 3 h and then washed six times with PBS. Washed cells were lysed with 0.1% Triton X-100. Released bacteria present in the suspension were collected and appropriate dilutions were plated on LB agar. To evaluate if the percentage of adherence in the treatment groups was significantly different from that of the control group, where the recovered counts from the control group (2.2×10⁷ CFU ml⁻¹) were considered to be 100%, the percentage of adherence in the negative control and treatment groups were calculated using the following equation.

${\% \mspace{14mu} {of}\mspace{14mu} {Recovery}} = \frac{{Group}\mspace{14mu} C\; F\; U\mspace{14mu} {ml}^{- 1} \times 100}{2.2 \times 10^{7}}$

Example 6 Mice Colonization Experiments

SPF female ICR mice were obtained at 3 weeks of age from Taconic Farms (Hudson, N.Y.), and used for the experiments after one-week acclamation. Mice were housed at the Isolation Unit of the Central Animal Facility (University of Guelph) in a temperature controlled environment with a 12 h light/dark cycle. Animal care was provided in accordance with the animal utilization protocol no. 04R030 (University of Guelph) and the Guide to the Care and Use of Experimental Animals (1). Mice were fed sterilized solid rodent chow and water. When needed, water was supplemented with Amp and Km at a concentration of 400 mg L⁻¹ and 200 mg L⁻¹, respectively. Each mouse was assessed daily for weight, body temperature, signs of dehydration, posture and alertness.

Example 7 Mice Experiments Dose-Response Experiments

Ten mice were divided into 5 equal groups (n=2), and each group was infected by oral gavage with 100 μl of bacterial cell suspension containing 10⁵ to 10⁹ cells. Mice were given the antibiotics required for selection of the luxCDABE-encoding plasmid in their drinking water at concentrations mentioned previously. Sucrose (5% w/v) (Sigma-Aldrich Canada Ltd,) was added in order to make the water supplemented with the antibiotics palatable. The 5% sucrose solution supplemented with the antibiotics was changed daily.

Feeding-Infection Experiments

Mice were divided into four groups. Group 1 was fed with 100 μl of La-5 fraction (negative control) (n=5); groups 2 and 3 were fed daily with 100 μl of La-5 fraction 2 days before (probiotic-EHEC) and 2 days after (EHEC-probiotic) challenge with 10⁸ CFU ml⁻¹ EHEC, respectively (n=5); and group 4 (positive control) was infected with 10⁸ CFU ml⁻¹ EHEC (n=5). Feeding-infection experiments were repeated three times.

Bioluminescent Imaging

Bioluminescent imaging was performed as previously described (4) with minor modifications. Briefly, bioluminescent imaging was monitored on the 3^(rd), 5^(th) and 7^(th) day after infection. Prior to imaging, mice were anesthetized with a cocktail composed of ketamine (60 mg kg⁻¹) and medetomidine (0.75 mg kg⁻¹). Atipamezole (2.25 mg kg⁻¹) was used to reverse the effects of the anesthetics. All drugs were administered intraperitoneally. Both bioluminescent and photo images of mice were taken with a cooled slow-scan CCD camera (NightOWL Molecular Imager, EG&G Berthold Technologies, Wildbad, Germany). The integration time for bioluminescence was one minute at low resolution. Images were processed with the WinLight software (EG&G Berthold). Pseudocolor images were obtained to represent the distribution of bioluminescent intensity, which changed from blue to yellow to red with increasing light output. Bioluminescent images were superimposed onto photo images of the same mice to locate the origin of bioluminescence. The areas of maximum bioluminescence were identified with the use of the 2D peak search option of the software, and light output from these areas was calculated in terms of relative light unit counts per cm² per sec (cts [cm² s⁻¹]⁻¹) with the WinLight program. The dose-response experiment was carried out over 7 days. The feeding-infection experiment was carried out over 12 days or until the end point of the experiment (indicated by a body temperature of <34° C. and/or loss of 20% of body weight) had been reached. At the end point, mice were euthanized with carbon dioxide (CO₂).

Enumeration of EHEC O157 Shed in Feces

Fresh feces of mice were weighed and suspended in PBS (0.5 g of feces per 4.5 ml of 0.1% [w/v] sterile peptone water) to obtain a concentration of 100 mg ml⁻¹. The fecal suspensions were serially diluted 10-fold and appropriate dilutions were plated in triplicate on LB agar alone and on LB agar supplemented with 50 μg ml⁻¹ Amp and Km. Colonies that developed after incubation for 24 h at 37° C. were counted. The limit of detection was 10² CFU g⁻¹ feces. A value of 10² g⁻¹ feces was assigned to any culture showing no detectable colonies for the purpose of statistical analysis.

Statistical Analysis

All results in this study are means of three independent trials±standard deviations. The Student's t test was used, when necessary, to assess the statistical significance of the differences between test and control groups (P<0.05).

Example 8 Effect of Enzymes, Temperature and pH on CFSM Activity

All active CFSM pH was adjusted to 6.0 with sterile 1N NaOH. Aliquots of the samples were treated with the following enzymes (1 mg ml⁻¹) and incubated for 2 h at 30° C.: Proteinase K (Sigma-Aldrich Ltd., Oakville, ON, Canada), trypsin (Sigma-Aldrich) and pepsin (Sigma-Aldrich). The effect of pH on the CFSM was tested by adjusting the CFSM to values ranging from 2.0 to 10.0 (at increments of one pH unit) with sterile 1N NaOH or 1N HCL, and the treated CFSM was incubated for 30 min and 2 h, respectively, at 30° C. The effect of temperature on the activity of the CFSM was tested by heating from 30° C. to 100° C., with increments of 10° C. for a period of 20 min. All treated CFSM were tested for inhibitory activity using the EHEC O157:H7 constructs and the autoinducer bioassay described previously herein.

L. Acidophilus CFSM and Biologically Active Fractions Total Protein Content.

Total protein content (mg/ml) Lactobacillus acidophilus CFSM 9.7 CFSM pooled fractions 4.1 Pooled fractions peptide peaks 2.125 Peak 1 1.75 Peak 2 ND Peak 3 0.125 Peak 4 0.25 ND Protein content not detected

Enzymatic, temperature and pH treatment of the probiotic CFSM. Partial inactivation of inhibitory activity against EHEC O157:H7 LEE expression and AI-2 signaling molecule production was observed after treatment of biologically active CFSM with proteinase K and pepsin (Table 52). No reduction in activity was found after treatment with trypsin (Table 5.2). No decrease in activity was recorded after treatment at the different temperatures (30° C., 65° C., 90° C. and 100° C.) for 20 min (Table 5.2). The activity remained after 2 h of incubation at different pH values (2.0, 4.0, 6.0, 7.0 8.0, 9.0 and 10.0) (Table 5.2). None of the CFSM had any antimicrobial activity against EHEC O157:H7, as inhibition of growth was not observed throughout this study. Although most bacteriocins are only active against gram-positive bacteria, we needed to make sure that bacteriocins were not involved in the observed effects. We incubated L. acidophilus at a temperature of 37° C. which is known to greatly affect bacteriocin production (Matsusaki et al., 1996). Matzusaki et al, (Matsusaki et al., 1996) demonstrated that the optimal cultivation temperature for the production of nisin Z was 30° C. Together these results eliminate the possibility that the presence of bacteriocins was responsible for the inhibitory effects on the EHEC O157:H7 strains studied

Our results demonstrated that the L. acidophilus secreted molecules were not affected by changes in culture pH and that the molecule(s) are heat-resistant. The partial inactivation of activity observed after addition of proteinase K and pepsin suggest that they might be small molecules that could consist of short amino acid chains. Nonetheless, these results do not confirm that the active molecules are proteinaceous.

Factors affecting the inhibitory activity of L. acidophilus CFSM towards EHEC O157:H7 LEE expression and AI-2 production/uptake.

Treatment Cell-free spent medium activity Enzymes (0.1 mg ml⁻¹): Proteinase K, pepsin ± Trypsin + pH, 2.0-10.0 + Temperature, 30-100° C. (20 min) + + L. acidophilus inhibitory activity − No L. acidophilus inhibitory activity ± 30% L. acidophilus inhibitory activity

Example 9 Purification of the L. Acidophilus La-5 Secreted Peptides

Biologically active CFSM fractions were separated by fast pressure liquid chromatography (FPLC) on a Tricorn Superdex 10/300 GL column (Amersham Bioscience, Quebec, Canada) in order to collect and separate the peptides present. The running conditions established by the manufacturer were slightly modified. Briefly, one hundred microliters of CFSM fraction at a protein concentration of approximate 3.5 mg ml⁻¹ dissolved in 50 mM sodium phosphate buffer pH 7.0 was injected on the Superdex Peptide column connected to a FPLC pump (ThermoFinnigan A53500, ThermoInstruments Inc., Canada. Missisauga, ON) and eluted with the same buffer at a flow rate of 0.7 ml min⁻¹. The absorbance was recorded at 214 and 280 nm by means of a UV detector (SpectraSYSTEM, ThermoFinnigan, ThermoInstruments Inc.). The eluted peaks were pooled, freeze-dried and concentrated 10 times in 18-Ω water. The column was calibrated with α-lactalbumin standard (2.0 mg ml⁻¹). The calibration curve was used to determine the average molecular weight of the unknown samples. Chromatographic graphics were obtained using the Chromatography Workstation ChromQuest™. Total protein content of the collected peaks was measured as described previously (Table 5.1). Peptide samples were then desalted and concentrated onto a C₁₈ Vivapure® Micro spin columns (Sartorius Biotech Inc., Edgewood, N.Y., USA), and sent to the Biological Mass Spectrometry facility at the University of Guelph (Guelph, ON., Canada) for liquid chromatography-mass spectroscopy (LC-MS) and to the Advance Protein Technology Centre for Edman sequencing at the Hospital for Sick Children (Toronto, Canada).

Purification of the L. acidophilus La-5 secreted peptides. The FPLC chromatogram results show that the CFSM selected fractions are composed of four peptide fractions (FIG. 10). The molar mass of the peptide fractions was determined to be less than 14,000 Da. α-lactalbumin (MW of 14.2 kDa) was eluted at min 9.3 while the elution of the peptide peaks started at 23 min. These results demonstrate that the fractions contain small peptides that could consist of approximate 2 to 10 amino acid residues.

Peptide peaks collected were concentrated and desalted before being sent for LC-MS analysis and peptide sequencing. Mass spectrometry was carried out using an Agilent HPLC, coupled to an Agilent 6110 single quadripole LC/MS (Agilent Technologies). The molar masses of three peptide peaks (FI, FIII and FIV) were detected at m/z 994, 997, 1019, 1078, 1139, 1289 and 2466. Peptide peak (FII) showed no signal peaks (FIGS. 11, 12 and 13). The peptide sequencing analysis of peaks FI, FII and FIV showed that the peptide fractions are composed of 4 to 6 amino acid residues (Table 10). There is a possibility that the amino acid sequences obtained are partial peptide sequences of larger peptides or small proteins due to possible blocked N-termini. Blocked N-termini provide the single largest impediment to protein sequence analysis. An estimated 50-80% of all proteins naturally have chemically modified N-termini. The sequential Edman analysis sequences the N-terminal and internal protein. In this process, the N-terminal amino acid is reacted with phenylisothiocyanate (PITC) to form a phenylthiocarbamyl (PTC) protein. The PTC protein is then cleaved with trifluoroacetic acid (TFA), resulting in the formation of an intermediate anilinothiazolinone (ATZ). The intermediate is converted to the more stable phenylthiohydantoin (PTH) amino add derivative and subsequently separated by HPLC, compared against a standard, and identified by the sequencer software.

Example 10 Peptide Sequencing Analysis

Sample Amino acid residues Peptide  Y-Tyr P-Pro V-Val E-Glu P-Pro F-Phe peak (FI) Peptide  A-Ala, Y-Tir^(a), P-Pro P-Pro G-Gly, G-Gly, P-Pro peak (FIII) V-Val Y-Tyr Y-Tyr Peptide  N-Asn, A-Ala, Q-Gln P-Pro Y-Tyr peak (IV) F-Phe ^(a)Amino acid most likely to be present a residue 1

BLAST analysis of the peptide sequences. The amino acid sequences of the peptide peaks were introduce in the Basic Local Alignment Search Tool (BLAST) and found a number of matches. BLASTp was done using default opening and gap penalties and a default scoring matrix. We will mention only the 100% homology (Table 5.4).

Proteins with 100% homology to the peptide peaks as determined by BLASTp using default opening and scouring matrix and default gap penalties.

Peak sequence/ BLASTp protein sequence aligned (100% homology to peptide sequence) YPVEPF/YPVEPF YP 194702 neopullulanase [Lactobacillus acidophilus NCFM] YPPGGP/YPPG YP 193877 ornithine decarboxylase chain A [Lactobacillus acidophilus NCFM] NQPY/NQPY YP 193484 glutamine ABC transporter [Lactobacillus acidophilus NCFM]

TABLE 1 Bacterial strains and constructs used in this study Strain, plasmid, or Relevant construct Serotype genotype/property Reference Strains E. coli VS94 O157:H7 luxS negative 21 ATCC 43894 O157:H7 Stx1+ and Stx2+, CRIFS stock^(a) isolated from human stool. Michigan, USA L. acidophilus La-5 Probiotic lactic CRIFS stock^(a) acid bacteria Constructs E. coli ATCC 43894 (C4) O1S7:H7 Stx1+ and Stx2+, 15 LEE2::lux ^(a)CRIFS stock strains are deposited in the Canadian Research Institute for Food Safety (CRIFS) culture collection.

TABLE 2 Adherence of EHEC O157 strains to HEp-2 cells. Bacteria % Adherence^(b) EHEC 43894 100^(a)* EHEC 43894 coincubated with 10% L. acidophilus  26* La5 fraction 33 EHEC 43894 coincubated with 10% L. acidophilus  24* La5 fraction 34 EHEC VS94 luxS (−)ve + β-blocker  22 EHEC VS94 luxS (−)ve no β-blocker  64 ^(a)EHEC 43894 control group CFU ml⁻¹ were normalized to 100% adherence ability. ^(b)The results are average values of three independent replicates. *Statistically significant value (P = 0.001 [student t test]).

TABLE 3 Areas of maximum bioluminescence in EHEC O157 infected mice calculated in terms of relative light unit counts per cm² per sec. Mean Grey (cts [cm² s⁻¹]⁻¹)^(a,b) Mice experimental group EHEC 3^(rd) day (control group)   4002 ± 544^(ns) EHEC-probiotic 3rd day   5171 ± 637^(ns) Probiotic-EHEC 3rd day   4065 ± 884^(ns) EHEC 5^(th) day (control group)   21965 ± 4871* EHEC-probiotic 5th day   2176 ± 635* Probiotic-EHEC 5th day    792 ± 82* EHEC 7^(th) day (control group) NA^(c) EHEC-Probiotic 7th day    875 ± 172^(c) Probiotic-EHEC 7th day    422 ± 1493^(c) Dose-response assay EHEC 10⁵ 3^(rd) day   1900 ± 178 EHEC 10⁶ 3^(rd) day  2683.8 ± 65 EHEC 10⁷ 3^(rd) day 3364.85 ± 450 EHEC 10⁸ 3^(rd) day  5262.8 ± 391 EHEC 10⁹ 3^(rd) day   27998 ± 3059 ^(a)Areas of maximum bioluminescence were calculated in terms of relative light unit counts per cm² per sec (cts [cm² s⁻¹]⁻¹) ^(b)The results are means ± standard deviations of three replicates. ^(c)Control group did not survive to this point *Statistically significant value (P < 0.05 (student t test]) ^(ns)Not statistically significant value (P > 0.05 [student t test])

TABLE 4 Mice average body conditioning scoring and survival rate 7 days after challenge with EHEC O157:H7. Rough Body hair Survival temperature coat Lethargic rate by Mice experimental group (° C.)^(a) (+/−)*^(b) (+/−)*^(b) 5^(th) day^(b) Group 1 (negative control)  38.2 ± 0.17 − − 5/5 Group 2 (probiotic-EHEC) 33.3 ± 1.7 + − 5/5 Group 3 (EHEC-probiotic) 33.6 ± 1.3 ++ − 5/5 Group 4 (positive control) 30.9 ± 1.3 +++ +++ 2/5 ^(a)Data are means ± standard deviations of three group (n = 5) replicates ^(b)Signs of deterioration and survival rate are averages of three group (n = 5) replicates *(+) represents the presence of the sign of deterioration, (−) represents the absence of the sign of deterioration

TABLE 5 Bacterial strains and constructs used to study effects on hilA (luxCDABE::hilA) Strain, plasmid, or construct Serotype Relevant genotype/property Reference Strains L. acidophilus Probiotic lactic CRIFS stock^(a) LA-5 acid bacteria B. longum Probiotic lactic CRIFS stock^(a) acid bacteria B. bifidum Probiotic lactic CRIFS stock^(a) acid bacteria B. infantis Probiotic lactic CRIFS stock^(a) acid bacteria B. crudilactis Probiotic lactic [Delcenserie acid bacteria et al., 2008] Constructs E. coil ATCC O157:H7 Stx-, LEE1::lux (Medellin-Pena 43888 (C1) et al., 2007) ^(a)CRIFS stock strains are deposited in the Canadian Research Institute for Food Safety (CRIFS) culture collection.

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1. A composition comprising isolated secreted molecules from probiotic bacteria that prevent and/or treat enteric bacterial infection in mammals, wherein said probiotic bacteria is selected from Lactobacillus, Lactococcus, Streptococcus, Bifidobacterium and combinations thereof.
 2. (canceled)
 3. The composition of claim 1, wherein said Lactobacillus is selected from Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, and Lactococcus Lactis, and wherein said Bifidobacterium is selected from Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis and Biidobacterium crudilactis and mixtures thereof.
 4. (canceled)
 5. (canceled)
 6. The composition of claim 1, wherein said Streptococcus is Streptococcus thermophilus.
 7. The composition of claim 1, wherein said composition is effective against Salmonella and/or Escherichia coli colonization.
 8. The composition of claim 7, wherein said Salmonella is strain Salmonella enterica and said Escherichia coli is EHEC 0157:H7.
 9. (canceled)
 10. The composition of claim 1, further combined with an edible food product, nutritional supplement, ingestible liquid, one or more strains of whole probiotic bacteria and combinations thereof.
 11. (canceled)
 12. The composition of claim 1, wherein said secreted molecule is from Lactobacillus acidophilus.
 13. The composition of claim 1, wherein said secreted molecule comprises a sequence selected from YPVEPF, YPPGGP, YPPG, NQPY and combinations thereof.
 14. The composition of claim 1 further comprising a sugar source and/or one or more antibiotics.
 15. The composition of claim 14, wherein the sugar source is glucose.
 16. (canceled)
 17. The composition of claim 1, wherein said composition is provided as a lyophilized culture fraction.
 18. Probiotic bacteria molecules, said molecules comprising a sequence selected from YPVEPF, YPPGGP, YPPG, NQPY and combinations thereof, wherein said molecules are for treatment and prevention of enteric bacterial infection in mammals in vivo.
 19. The molecules of claim 18, wherein said molecules are isolated from Lactobacillus acidophilus.
 20. The molecules of claim 19, wherein said molecules are combined with one or more of an antibiotic, a sugar source, an edible food product, a nutritional supplement and ingestible liquid.
 21. A probiotic bacterial isolated peptide fraction, said peptide fraction comprising secreted molecules from Lactobacillus, Lactococcus, Streptococcus, Bifidobacterium and combinations thereof treatment and prevention of enteric bacterial infection in mammals in vivo, wherein said secreted molecules have one or more of the following characteristics: are proteinaceous; low molecular weight; can withstand heating up to about 90° C., freezing, thawing, lyophilization spray drying and decrease virulence-related gene-expression.
 22. (canceled)
 23. A food product, beverage product, health product, medicament or nutritional supplement that comprises a composition of claim 1, wherein said probiotic bacteria are selected from Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Streptococcus thermophilus, Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis, and combinations thereof and further optionally comprising one or more strains of whole probiotic bacteria.
 24. The food product, beverage product, health product, medicament or nutritional supplement of claim 23, wherein said molecule comprises an amino acid sequence selected from the group consisting of YPVEPF, YPPGGP, YPPG, NQPY and combinations thereof.
 25. A method for preventing and/or treating infections by Escherichia coli O157:H7 and/or Salmonella in a mammal the method comprising administering to said mammal an effective amount of a composition of claim 1 and optionally an antibiotic.
 26. The method of claim 25, wherein said secreted molecule comprises an amino acid sequence selected from the group consisting of YPVEPF, YPPGGP, YPPG, NQPY and combinations thereof.
 27. (canceled)
 28. A method for preventing the carriage by a food production animal of Salmonella strains that cause human salmonellosis, said method comprising administering an effective amount of a composition of claim 1 to the food production animal prior to exposure to Salmonella strains that cause human salmonellosis.
 29. A method of preventing colonization by harmful bacteria in a mammal, the method comprising administration of an effective amount of the molecules of claim 18 to said mammal.
 30. (canceled)
 31. (canceled)
 32. The method of claim 28, wherein said molecule inhibits the colonization of E. coli O157:H7 and/or Salmonella.
 33. The method of claim 32, wherein said method further comprises the administration of a probiotic bacterium,
 34. A method of making a composition of molecules from probiotic bacteria the method comprising: culturing for a time period under suitable conditions a probiotic bacteria selected from the group consisting of Lactobacillus acidophilus (La-5), Lactobacillus fermentum, Lactobacillus rhamnosus, Lactococcus Lactis, Bifidobacterium longum, Bifidobacterium bifidum, Bifidobacterium infantis, Bifidobacterium crudilactis, Streptococcus thermophilus and combinations thereof in a suitable culture medium; and collecting said culture medium, wherein said composition has beneficial health effects in a mammal,
 35. The method of claim 34, wherein said secreted molecules are further isolated from said culture medium.
 36. The method of claim 35, wherein said molecules comprise an amino acid sequence selected from the group consisting of YPVEPF, YPPGGP, YPPG, NQPY and combinations thereof.
 37. The method of claim 35, further comprising adding an antibiotic, sugar source, edible food product, supplement, ingestible liquid and combinations thereof to said composition. 